Sequence
atgc intronic sequence ATGC exonic sequence...atgggtaatttttttttcttttaaatttcagttacaaaaaatttaattccaaacggtgaatgtttctttttgttatctgatgtattattatctgatgtagGACGTTCCACCACTGGATGTGCCAGAACTTTTGGCATATTTAGTGAGGCAATCTGGGCCATTTTTGGATCAACTTGGCTTCAAAACAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv08s0105g00260.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: LOC_Os02g33580.1 (Oryza sativa), 3'ss of exon 2
atgggtaatttttttttcttttaaatttcagt-tacaa--aaaatttaattccaaacggtgaatgtttc-tttttgttatctgatgtattattatc--------tgatgtagGACGTTCCACCACTGGATGTGCCAGAACTTTTGGCATATTTAGTGAGGCAATCTGGGCCATTTTTGGATCAACTTGGCTTCAAAACAG
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------------cagtcctatcaaaagacactctatagccaaatttttgttctgaacttttgatgcttggttaacatcattgcatgtataatctttgagcataataatgcagGAAGTTCCTCCTCTTGATCTGACTGAAATTATGGCAAATCTAGTTAGGCAATCTGGGCCCTTTTTGGATCAACTTGGTCTAAGGAGAG
upper sequence: Vv08s0105g00260.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: AC233887.1_FGT006 (Zea mays), 3'ss of exon 2
------atgggtaatttttttttcttttaaatttcagttacaaaaaatttaattccaaacggtgaatgtttctttttgttatctgatgtattattatctgatgtagGACGTTCCACCACTGGATGTGCCAGAACTTTTGGCATATTTAGTGAGGCAATCTGGGCCATTTTTGGATCAACTTGGCTTCAAAACAG
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ggggcttttggttattaactgataatatagtttcttgtgctagttgatctgattacttattgtttaaaatg--tgttgttatg----gtgctggaatattatgcagGATGTTCCACCACTGCATCTAACTGAAATTGTGGCATATCTGGTTCGGCAATCTGGGCCATTTTTAGATCAACTTGGCATACAGAGAGMapped EST sequences
Showing partial alignments of ESTs and genomic sequences. See full alignments
ATGC EST sequence
ATGC genomic sequence (exon)
ATGC genomic sequence (truncated intron)
EST:
gi|294965488|gb|GW839059.1|GW839059EST: AAAGCAATTTGCAGGGAGCCTCAGGAGTCCAAG GACGTTCCACCACTGGATGTGCCAGAACTTTGGGCATATTTAGTGAGGCAA
genomic: AAAGCAATTTGCAGGGAGCCTCAGGAGTCCAAGgttgggtgtc ... tctgatgtagGACGTTCCACCACTGGATGTGCCAGAACTTTTGGCATATTTAGTGAGGCAA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.attccaaacggtgaatgtttctttttgttatctgatgtattattatctgatgtagGACGTTCCACCACTGGATGTGCCAGAACTTTTGGCATATTTAGTGAGGCAATCTGGGCCATTTTTGGATCAACTTGGCTTCAAAACAG
atctgat putative branch site (score: 4)
tttctttttgttat TA-rich tract
Putative cis-regulatory sequences
atgc | intron | ATGC | exonic elements by Pertea et al. |
ATGC | exon | atgc | putative intronic elements |
| | ATGC | putative exonic elements identified for retained introns |
10 20 30 40 50 60 70 80 90 100 110 120 130 140 150 160 170 180 190 200 210 220
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
atgggtaatttttttttcttttaaatttcagttacaaaaaatttaattccaaacggtgaatgtttctttttgttatctgatgtattattatctgatgtagGACGTTCCACCACTGGATGTGCCAGAACTTTTGGCATATTTAGTGAGGCAATCTGGGCCATTTTTGGATCAACTTGGCTTCAAAACAG
- - - - - - - - - - - - - - - - - -aaaaaat
- - - - - - - - - - - - - - - - - - - - - - - -tccaaac
- - - - - - - - - - - - - - - - - - - - - - - - - - - -gtgaatg